Asian Journal of Biotechnology and Genetic Engineering

An Application of Residue Number System (RNS) to a Next-Generation Sequencing - SOLiD

Joshua Apigagua Akanbasiam *

Department of Electrical/Electronics Engineering, Dr Hilla Limann Technical University, Wa, Ghana.

Kwame Osei Boateng

Department of Computer Engineering, Kwame Nkrumah University of Science and Technology Kumasi, Ghana.

Matthew Glover Addo

Department of Theoretical and Applied Biology, Kwame Nkrumah University of Science and Technology Kumasi, Ghana.

*Author to whom correspondence should be addressed.

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Abstract

Aims: This research work leverages the possibility and potential of an RNS-dibase table to generate the sequence primer and colour space for successful SOLiD sequencing. This design is flexible as compared with its binary counterpart and also presents a quaternary approach to SOLiD sequencing.

Study Design: RNS sequence primer and colour space are generated resulting in a successful RNS-SOLiD Sequencing.

Methodology: One of the most accurate Next Generation Sequencing (NGS) methods currently in use is Sequencing by Oligonucleotide Ligation and Detection (SOLiD). It combines ligation-base chemistry with a di-base labelled probe to produce an accuracy rate of about 99.9999%. RNS has the potential of generating the di-base table which is the Rosetta stone for SOLiD sequencing. Leveraging this possibility, the sequence primer and colour space which are requirements for a successful SOLiD sequencing are generated in RNS space. Following this, SOLiD sequencing is therefore designed using RNS.

Results: An RNS di-base table is presented and this serves as a look-up table for the generation of RNS sequence primer and colour space for successful SOLiD sequencing. A platform-independent algorithm is also developed that effectively illustrates SOLiD sequencing in RNS space.

Conclusion: This lays the groundwork for the incorporation of RNS into SOLiD sequencing. This design is flexible and buttresses the quest for a quaternary number system for molecular biological design and analysis.

Keywords: RNS, SOLiD, sequence primer, colour space, single nucleotide polymorphism, di-base table, measurement errors, mismatched leading base

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